Sequence
atgc intronic sequence ATGC exonic sequenceAGTTGAGATTGAGATAACAAAGCTATTATTGAAATCCTACTATGACATTGTAAGGAAGAATGTCGAGGACTTGGTCCCAAAAGCAATCATGCATTTTCTGgttagtgttccactcttctagtcttctgattgtctagccaaacatcttatggtcattgatgacacttagtgtgggtcgattctttgtgaggggactaataactctattccatataattgtgaataaaacacag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G14120.1 |
intron # | 17 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G14120.3 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: LOC_Os01g69130.2 (Oryza sativa), 5'ss of exon 17
AGTTGAGATTGAGATAACAAAGCTATTATTGAAATCCTACTATGACATTGTAAGGAAGAATGTCGAGGACTTGGTCCCAAAAGCAATCATGCATTTTCTGgttagtgttccactcttctagtcttctgattgt--ctagccaaacatcttatggtcattgatgacacttagtgtgggtcgattctttgtgaggggactaataactctattccatataattgtgaataaaacacag
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GCTTGAAATAGCAATAACTAAGTTGCTACTGAAGTCATATTACAATATAGTGCGGAAAAATGTTGAGGACTTCGTTCCAAAGGCAATCATGCATTTTCTGgtccgtgatc-gttgtctcacttttctcattattactcgctttgcataggatggtgatttatttggcacattatt--tcgattataactaatgtttctggaca--------------------------------
upper sequence: AT2G14120.3 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GLYMA07G30150.1 (Glycine max), 5'ss of exon 17
AGTTGAGATTGAGATAACAAAGCTATTATTGAAATCCTACTATGACATTGTAAGGAAGAATGTCGAGGACTTGGTCCCAAAAGCAATCATGCATTTTCTGgttagt-gttccactcttctagtcttc------tgattgtctagccaaacatcttatggtcattgatgacacttagtgtgggtcg--attctttgtgaggggactaataactctattccatataattgtgaataaaacacag
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TGTTGAAATCACAGTAACAAAGTTGCTTTTGAAATCATACTATGACATTGTCAGGAAAAATGTTGAGGATCTTGTCCCCAAAGCAATTATGCACTTCTTGgtacttcgtattcatcttctaggctttgcaaaatagttttttaattagatgctgca-aatggtgaatattagccaatataagtcagaagtcaccatcaaaa-----------------------------------------
upper sequence: AT2G14120.3 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GLYMA08G07160.1 (Glycine max), 5'ss of exon 17
AGTTGAGATTGAGATAACAAAGCTATTATTGAAATCCTACTATGACATTGTAAGGAAGAATGTCGAGGACTTGGTCCCAAAAGCAATCATGCATTTTCTGgttagtgttccactcttctagtcttctgattgtctagccaaac-atcttatggtcattgatgacacttagtgtgggtcgattctttgtgaggggactaataactctattccatataattgtgaataaaacacag
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TGTTGAAATCACAGTAACAAAGTTGCTTTTGAAATCATACTATGACATTGTCAGGAAAAATGTTGAGGATCTTGTCCCCAAAGCAATTATGCACTTCTTGgt--actttatattcttct-----tctag--gctttgctaaattgtttttcaatta--gatgccccaaatgatgaat--att----------agacaaataatctgctttca---atttccaaatt--------
upper sequence: AT2G14120.3 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GLYMA04G16340.1 (Glycine max), 5'ss of exon 17
AGTTGAGATTGAGATAACAAAGCTATTATTGAAATCCTACTATGACATTGTAAGGAAGAATGTCGAGGACTTGGTCCCAAAAGCAATCATGCATTTTCTGgttagtgttccactcttctagtcttctgattgtctagccaaacatcttatggtcattgatgacact-tagtgtgggtcgattctttgtgaggggactaataactctattccatataattgtgaataaaacacag
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TATTGACATAACAGTAACAAAGTTGCTTTTGAGATCATACTATGACATTGTCAGAAAAAATGTTGAGGATTTGGTCCCTAAAGCAATTATGTATTTCTTGgtactttacctcatcttc----cttgtag--gatttgtgaagtat--tgcaattataaatttcaaagtagcaatctcttgtcttttgtgctgcatacagaaattagag--------------------------
upper sequence: AT2G14120.3 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: PP1S187_100V6.2 (Physcomitrella patens), 5'ss of exon 19
AGTTGAGATTGAGATAACAAAGCTATTATTGAAATCCTACTATGACATTGTAAGGAAGAATGTCGAGGACTTGGTCCCAAAAGCAATCATGCATTTTCTGgttagtg--ttccactcttctagtcttctgattgtctagccaaa---cat----cttatggtcattgatgacacttagtgtgggtcgattctttgtgaggggactaataactctat---tccatataattgtgaataaaacacag-----------------------
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TCTGGAAATTGCTGTGACTCGATTGCTACTTAAGTCCTACTATGACATTGTGCGGAAGAATATTCAAGACTTAGTACCGAAAGCTATCATGCATTTCCTGgtttgtagttttctcacttatatcttgctgaagatgttgcttcaattcattggacttactgtcataggtt-tactaggaggcagcaatacatttgttggtctatgaataagtttacatgtttccttggtcgaattttcaacctgatgactgttttcttgatataacagMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|116443269|gb|EG485861.1|EG485861EST: TAAGGAAGAATGTCGAGGACTTGGTCCCAAAAGCAATCATGCATTTTCTG GTAAATTACACGAAACGTGAGCTGCACAATGTTTTCATCGAGAAGCTTTAC
genomic: TAAGGAAGAATGTCGAGGACTTGGTCCCAAAAGCAATCATGCATTTTCTGgttagtgttc ... taaaacacagGTAAATTACACGAAACGTGAGCTGCACAATGTTTTCATCGAGAAGCTTTAC
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGTTGAGATTGAGATAACAAAGCTATTATTGAAATCCTACTATGACATTGTAAGGAAGAATGTCGAGGACTTGGTCCCAAAAGCAATCATGCATTTTCTGgttagtgttccactcttctagtcttctgattgtctagccaaacatcttatggtcattgatgacacttagtgtgggtcgattctttgtgaggggactaataactctattccatataattgtgaataaaacacag
- - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA